FootJoy has great customer service for this kind of issue. Below is the Warranty info from thier website. I would go there and follow the instructions. Basically get the Pro Shop to help you out here.
FootJoy stands behind the quality of materials and workmanship of all FootJoy golf shoes. We will fully support our warranties and administer them fairly and equitably.
1. Full 90-Day Quality Warranty
All FootJoy golf shoes are warranted to be free of defects in materials and workmanship for 90 days from the date of original purchase. Shoes found to be defective will be repaired of replaced with the same style or an equivalent FootJoy shoe at FootJoy's sole discretion.
2. Limited Waterproof Warranty
FootJoy warrants that certain FootJoy golf shoes purchased in the United States will be waterproof in normal use for two years or one year (depending on the actual style purchased) from the date of original purchase, provided that the shoes have suffered no cuts, abrasions, or other damage and have not been subjected to abuse or other mistreatment.
Should leakage develop within the applicable Limited Warranty period, FootJoy will issue credit for such shoes as follows:
(I) if shoes are returned during the first year of any warranty period, FootJoy will replace the shoes with the same style or equivalent FootJoy shoe, and
(II) if shoes are returned during the second year of a two-year warranty period, the purchaser will be credited with 50% of the then current cost toward the purchase of the same style or equivalent FootJoy shoe.
This Limited Warranty extends only to the waterproof characteristics of the shoe. This warranty does not apply to shoes used outside the United States. The applicable warranty for such shoes is the warranty given for shoes sold in the country of use.
3. Limited 30-Day Comfort Warranty
FootJoy assures the comfort and workmanship quality of all FootJoy shoes purchased and used in the United States for a full 30 days from the date of receipt.
Shoes that are returned (with proof of purchase) to the original place of purchase within 30 days will receive a full replacement (same size). Footwear that has been damaged, altered, or abused in any way will not be honored under this warranty. This warranty gives you specific legal rights, and you may also have other rights that vary from state to state.
Not covered: Worn shoes returned for size exchange.
*Because of the natural variation of grains and textures in alligator and lizard leather, the uppers of these shoes are delicate skins and cannot be guaranteed in any way.